133 related articles for article (PubMed ID: 21169377)
1. ABMapper: a suffix array-based tool for multi-location searching and splice-junction mapping.
Lou SK; Ni B; Lo LY; Tsui SK; Chan TF; Leung KS
Bioinformatics; 2011 Feb; 27(3):421-2. PubMed ID: 21169377
[TBL] [Abstract][Full Text] [Related]
2. RNA-Seq read alignments with PALMapper.
Jean G; Kahles A; Sreedharan VT; De Bona F; Rätsch G
Curr Protoc Bioinformatics; 2010 Dec; Chapter 11():Unit 11.6. PubMed ID: 21154708
[TBL] [Abstract][Full Text] [Related]
3. OSA: a fast and accurate alignment tool for RNA-Seq.
Hu J; Ge H; Newman M; Liu K
Bioinformatics; 2012 Jul; 28(14):1933-4. PubMed ID: 22592379
[TBL] [Abstract][Full Text] [Related]
4. Supersplat--spliced RNA-seq alignment.
Bryant DW; Shen R; Priest HD; Wong WK; Mockler TC
Bioinformatics; 2010 Jun; 26(12):1500-5. PubMed ID: 20410051
[TBL] [Abstract][Full Text] [Related]
5. TopHat: discovering splice junctions with RNA-Seq.
Trapnell C; Pachter L; Salzberg SL
Bioinformatics; 2009 May; 25(9):1105-11. PubMed ID: 19289445
[TBL] [Abstract][Full Text] [Related]
6. Using RNA-Seq to Discover Genetic Polymorphisms That Produce Hidden Splice Variants.
Stein S; Bahrami-Samani E; Xing Y
Methods Mol Biol; 2017; 1648():129-142. PubMed ID: 28766294
[TBL] [Abstract][Full Text] [Related]
7. Mapping RNA-seq reads to transcriptomes efficiently based on learning to hash method.
Yu X; Liu X
Comput Biol Med; 2020 Jan; 116():103539. PubMed ID: 31765913
[TBL] [Abstract][Full Text] [Related]
8. STAR: ultrafast universal RNA-seq aligner.
Dobin A; Davis CA; Schlesinger F; Drenkow J; Zaleski C; Jha S; Batut P; Chaisson M; Gingeras TR
Bioinformatics; 2013 Jan; 29(1):15-21. PubMed ID: 23104886
[TBL] [Abstract][Full Text] [Related]
9. JAGuaR: junction alignments to genome for RNA-seq reads.
Butterfield YS; Kreitzman M; Thiessen N; Corbett RD; Li Y; Pang J; Ma YP; Jones SJ; Birol İ
PLoS One; 2014; 9(7):e102398. PubMed ID: 25062255
[TBL] [Abstract][Full Text] [Related]
10. BamView: viewing mapped read alignment data in the context of the reference sequence.
Carver T; Böhme U; Otto TD; Parkhill J; Berriman M
Bioinformatics; 2010 Mar; 26(5):676-7. PubMed ID: 20071372
[TBL] [Abstract][Full Text] [Related]
11. Fast and accurate short read alignment with Burrows-Wheeler transform.
Li H; Durbin R
Bioinformatics; 2009 Jul; 25(14):1754-60. PubMed ID: 19451168
[TBL] [Abstract][Full Text] [Related]
12. Mapping RNA-seq Reads with STAR.
Dobin A; Gingeras TR
Curr Protoc Bioinformatics; 2015 Sep; 51():11.14.1-11.14.19. PubMed ID: 26334920
[TBL] [Abstract][Full Text] [Related]
13. Improving read mapping using additional prefix grams.
Kim J; Li C; Xie X
BMC Bioinformatics; 2014 Feb; 15():42. PubMed ID: 24499321
[TBL] [Abstract][Full Text] [Related]
14. Fast and accurate long-read alignment with Burrows-Wheeler transform.
Li H; Durbin R
Bioinformatics; 2010 Mar; 26(5):589-95. PubMed ID: 20080505
[TBL] [Abstract][Full Text] [Related]
15. OLego: fast and sensitive mapping of spliced mRNA-Seq reads using small seeds.
Wu J; Anczuków O; Krainer AR; Zhang MQ; Zhang C
Nucleic Acids Res; 2013 May; 41(10):5149-63. PubMed ID: 23571760
[TBL] [Abstract][Full Text] [Related]
16. Acceleration of short and long DNA read mapping without loss of accuracy using suffix array.
Tárraga J; Arnau V; Martínez H; Moreno R; Cazorla D; Salavert-Torres J; Blanquer-Espert I; Dopazo J; Medina I
Bioinformatics; 2014 Dec; 30(23):3396-8. PubMed ID: 25143289
[TBL] [Abstract][Full Text] [Related]
17. 2passtools: two-pass alignment using machine-learning-filtered splice junctions increases the accuracy of intron detection in long-read RNA sequencing.
Parker MT; Knop K; Barton GJ; Simpson GG
Genome Biol; 2021 Mar; 22(1):72. PubMed ID: 33648554
[TBL] [Abstract][Full Text] [Related]
18. iMapSplice: Alleviating reference bias through personalized RNA-seq alignment.
Liu X; MacLeod JN; Liu J
PLoS One; 2018; 13(8):e0201554. PubMed ID: 30096157
[TBL] [Abstract][Full Text] [Related]
19. Fast and SNP-tolerant detection of complex variants and splicing in short reads.
Wu TD; Nacu S
Bioinformatics; 2010 Apr; 26(7):873-81. PubMed ID: 20147302
[TBL] [Abstract][Full Text] [Related]
20. Assessment of the impact of using a reference transcriptome in mapping short RNA-Seq reads.
Zhao S
PLoS One; 2014; 9(7):e101374. PubMed ID: 24992027
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
